A whistleblower who alleged that Britain’s nuclear-armed submarines have major security flaws has left his post in unspecified circumstances, the Royal Navy has said, after an inquiry found no safety breaches had occurred.

Able Seaman William McNeilly released a lengthy dossier last month in which he said the Trident nuclear defence system was vulnerable to its enemies and potentially devastating accidents because of safety failures.

The government held an inquiry into his allegations which concluded many of his assertions were factually incorrect or the result of misunderstandings.

“We can confirm that AB McNeilly has left the Naval Service, the details of which are a matter for the individual and his employer,” a spokeswoman for the Royal Navy said in a statement.

In his report, which was published online and also sent to newspapers and journalists, Mr McNeilly said he is an engineering technician submariner who has been on patrol with the Trident submarine HMS Victorious.

He claimed there are fire risks and leaks on board and security checks are rarely carried out on personnel and contractors working on the submarines when they are docked at Faslane.

He also alleged that alarms were muted because they went off so often, missile safety procedures were ignored and top-secret information was left unguarded.